Rv0019c

Summary
Symbol Product Feature Type Start End Strand Length AA Length is TF
Rv0019c fhaB CDS 23270 23737 - 468 155 FALSE

Rv0019c () is predicted to be co-regulated in modules bicluster_0270 with residual 0.54 and bicluster_0329 with residual 0.54.

This regulation is possibly mediated by two de-novo identified cis-regulatory motifs in each module with e-values , 890.00 and 32,000.00 for bicluster_0270 and 0.00 and 1.10 for bicluster_0329 respectively.

These modules are enriched for following go terms: inositol metabolic process, inositol biosynthetic process, polyol biosynthetic process, acyl-CoA dehydrogenase activity.

This gene is found to be non-essential for growth on cholesterol.

Mutant available?:

Displaying 1 - 1 of 1
Gene Target Differential Expression Distance Expression pvalue Type
No results were found
Displaying 1 - 2 of 2
ChipSeq TF Differential Expression Distance Expression pvalue Type
Transcriptional regulator, TetR family
No -116 0.28 0.377159 Primary.TSS
Organic hydroperoxide resistance transcriptional regulator
No -130 -0.03 0.950999 Primary.TSS
Motif 1 Motif 2 Residual
bicluster_0270
e.value: 
890
Motif Bicluster: 
e.value: 
32000
Motif Bicluster: 
0.54
bicluster_0329
e.value: 
0.00000000023
Motif Bicluster: 
e.value: 
1.1
Motif Bicluster: 
0.54
Product (LegacyBRC) Product (RefSeq)
Putative uncharacterized protein
Operon # Operon
11 Rv0019c
PATRIC Locus Tag Enzyme Name PATRIC Pathways Transcriptomics
Not assigned Not assigned
Locus Tuberculist Genome View

Tuberculist

Quickview
Locus Tag KEGG Pathways

KEGG

not assigned to any KEGG Pathway.
BioCyc Gene Page Cellular Overview Map
Link to STRING STRING Network

STRING

GI Number Protein ID Blast Conserved Domains
15607161 NP_214533.1 Run
GO:0005515

protein binding

protein binding

Details: 
Interacting selectively and non-covalently with any protein or protein complex (a complex of two or more proteins that may include other nonprotein molecules).
GO Category: 
molecular_function
135
Total items in this category:  
GO:0005576

extracellular region

extracellular region

Details: 
The space external to the outermost structure of a cell. For cells without external protective or external encapsulating structures this refers to space outside of the plasma membrane. This term covers the host cell environment outside an intracellular parasite.
GO Category: 
cellular_component
272
Total items in this category:  
GO:0005886

plasma membrane

plasma membrane

Details: 
The membrane surrounding a cell that separates the cell from its external environment. It consists of a phospholipid bilayer and associated proteins.
GO Category: 
cellular_component
1284
Total items in this category:  
GO:0006979

response to oxidative stress

response to oxidative stress

Details: 
Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of oxidative stress, a state often resulting from exposure to high levels of reactive oxygen species, e.g. superoxide anions, hydrogen peroxide (H2O2), and hydroxyl radicals.
GO Category: 
biological_process
13
Total items in this category:  
GO:0044119

growth of symbiont in host cell

growth of symbiont in host cell

Details: 
The increase in size or mass of symbiont, occurring in its host's cell. The host is defined as the larger of the organisms involved in a symbiotic interaction.
GO Category: 
biological_process
50
Total items in this category:  
GO:0051301

cell division

cell division

Details: 
The process resulting in the physical partitioning and separation of a cell into daughter cells.
GO Category: 
biological_process
3
Total items in this category:  
Description:Expression data from transcription factor over expression experiments. TFOE are matched to the ChIP-seq experiment done simultaneously. This dataset is described in Rustad et al. 2014, Genome Biology.
BioProject Accession GEO Series References Repository Sample Method Sample Type
PRJNA254351 GSM1426365 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426366 GSE59086 25232098 GEO Tiling Array RNA
PRJNA254351 GSM1426367 GSE59086 25232098 GEO Tiling Array RNA
Experiment UCSC Genome Browser
Rv0019c_B387 UCSC Browser Tracks
Quantitative Proteomics Data
Cholesterol Essentiality t-test p-value Cholesterol/Glycerol Ratio
non-essential 0.010000 0.29

How essentiality calculations were done?

The relative representation of each mutant was determined by calculating the fold change (sequence reads/insertion in cholesterol divided by sequence reads/insertion in glycerol) for each gene. Statistical significance was determined by t-test. Each insertion site in each replicate sample was treated as a separate data point. The hyperbola used for defining genes specifically required for growth in cholesterol was defined by the formula, y = 3.8/x+0.7. Genes above this line are annotated as required for growth on cholesterol.

Displaying 1 - 17 of 17
Condition Count Day Doublings Fitness U.I Plots
D0U 27 0 0.00 13.64 U
D3I 3 3 3.83 13.74 I
D3U 3 3 3.83 14.12 U
D5I 9 5 6.00 12.25 I
D5U 17 5 6.00 12.02 U
D7I 18 7 8.14 14.13 I
D7U 19 7 8.14 13.80 U
D14I 4 14 15.63 13.64 I
D14U 4 14 15.63 13.57 U
D17I 3 17 19.15 13.34 I
D17U 3 17 19.15 13.51 U
D21I 4 21 23.23 13.25 I
D21U 4 21 23.23 13.57 U
D24I 3 24 26.60 12.51 I
D24U 3 24 26.60 13.38 U
D28I 4 28 30.61 12.47 I
D28U 4 28 30.61 13.13 U